axon_synthesis.synthesis.source_points¶

Create the source points from the atlas.

Functions

`combine_existing_axons`(cells_df)	Combine rebuilt existing axons with explicitly given axons.
`fill_morph_file_col`(cells_df, morph_dir)	Find the files corresponding to the given morphology names.
`find_existing_axons`(morph_file)	Find the positions of the existing axons in a morphology.
`map_population`(cells_df, atlas[, ...])	Find the population given the position of the morphology and the populations.
`section_id_to_position`(morph, sec_id)	Find the position of the last point of the section from its ID.
`set_source_points`(cells_df, atlas, morph_dir)	Extract source points from a cell collection.

axon_synthesis.synthesis.source_points.combine_existing_axons(cells_df)¶: Combine rebuilt existing axons with explicitly given axons.

axon_synthesis.synthesis.source_points.fill_morph_file_col(cells_df, morph_dir)¶: Find the files corresponding to the given morphology names.

Warning

The validity of the morphology files is not tested but only their existence.

axon_synthesis.synthesis.source_points.find_existing_axons(morph_file)¶: Find the positions of the existing axons in a morphology.

axon_synthesis.synthesis.source_points.map_population(cells_df: DataFrame, atlas: AtlasHelper | None, populations: DataFrame | None = None, *, rng: None | int | Sequence[int] | SeedSequence | BitGenerator | Generator = None)¶: Find the population given the position of the morphology and the populations.

axon_synthesis.synthesis.source_points.section_id_to_position(morph, sec_id)¶: Find the position of the last point of the section from its ID.

axon_synthesis.synthesis.source_points.set_source_points(cells_df: DataFrame, atlas: AtlasHelper | None, morph_dir: str | PathLike, population_probabilities: DataFrame | None = None, axon_grafting_points: DataFrame | None = None, *, rng: None | int | Sequence[int] | SeedSequence | BitGenerator | Generator = None, rebuild_existing_axons: bool = False, logger: Logger | LoggerAdapter | None = None)¶: Extract source points from a cell collection.